HMM length of domain: 23 aa

c-Evalue (conditional Evalue): It is an attempt to measure the statistical significance of each domain, given that we’ve already decided that the target sequence is a true homolog. It is the expected number of additional domains we’d find with a domain score this big in the set of sequences reported in the top hits list, if those sequences consisted only of random nonhomologous sequence outside the region that sufficed to define them as homologs.
i-Evalue (independent Evalue): The significance of the sequence in the whole database search, if this were the only domain we had identified. 
Domain annotation for each sequence:
#	score	bias	c-Evalue	i-Evalue	hmmfrom	hmm to	alifrom	ali to
--	-----	----	--------	--------	-------	------	-------	------
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
1	5.3	1.0	0.49	29	1	23	246	268
2	7.8	1.5	0.077	4.6	1	23	275	297
3	17.6	1.7	6e-05	0.0036	2	23	316	338
4	18.5	0.1	3e-05	0.0018	1	21	347	367
5	16.2	2.4	0.00017	0.01	1	23	369	391
6	9.5	2.8	0.022	1.3	1	21	398	418
7	11.0	0.7	0.0072	0.43	1	23	428	451
8	12.1	1.2	0.0035	0.21	1	23	457	479
9	20.0	2.0	1.1e-05	0.00064	1	22	488	509

  Alignments for each domain:
  == domain 1  score: 5.3 bits;  conditional E-value: 0.49
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    +kC  C   F  k+ +++H+++H
  KWMTBOMO06247 246 FKCYNCAVGFLFKDTYQAHMMRH 268
                    8999***9999***********9 PP

  == domain 2  score: 7.8 bits;  conditional E-value: 0.077
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    y+C++C+ +F   s L++H +tH
  KWMTBOMO06247 275 YRCEVCTLRFACASVLRAHSKTH 297
                    9*******************999 PP

  == domain 3  score: 17.6 bits;  conditional E-value: 6e-05
                    EETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHirt.H 23 
                    +C+ Cg+ F +  nLk+H+++ H
  KWMTBOMO06247 316 PCHLCGRIFMDTTNLKQHLKRfH 338
                    6********************99 PP

  == domain 4  score: 18.5 bits;  conditional E-value: 3e-05
                    EEETTTTEEESSHHHHHHHHH CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHir 21 
                    y C++Cgks++++   ++H+ 
  KWMTBOMO06247 347 YSCSVCGKSYSNQGAVRTHMI 367
                    89******************6 PP

  == domain 5  score: 16.2 bits;  conditional E-value: 0.00017
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    + C++C+ +F++++ L++H ++H
  KWMTBOMO06247 369 FNCDKCPSTFSSPYTLNQHKKKH 391
                    89********************9 PP

  == domain 6  score: 9.5 bits;  conditional E-value: 0.022
                    EEETTTTEEESSHHHHHHHHH CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHir 21 
                    + C+ C+ +++++ +L++H r
  KWMTBOMO06247 398 HHCETCDVTYNSRKSLMAHKR 418
                    67*****************98 PP

  == domain 7  score: 11.0 bits;  conditional E-value: 0.0072
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    + C  C++ +++k +L++H+   H
  KWMTBOMO06247 428 FACRACNRLCPTKRSLESHMAAvH 451
                    77******************8777 PP

  == domain 8  score: 12.1 bits;  conditional E-value: 0.0035
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    + C++C+ +++++ + +rH  tH
  KWMTBOMO06247 457 FCCEVCDARYTNRKSWVRHVATH 479
                    78*******************99 PP

  == domain 9  score: 20.0 bits;  conditional E-value: 1.1e-05
                    EEETTTTEEESSHHHHHHHHHC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt 22 
                    + C  C+k+Fk++s+L+rH+++
  KWMTBOMO06247 488 FICYRCPKTFKSRSMLTRHLKK 509
                    78*****************985 PP